AFG1L
geneOn this page
Also known as AFG1
Summary
AFG1L (AFG1 like ATPase, HGNC:16411) is a protein-coding gene on chromosome 6q21, encoding AFG1-like ATPase (Q8WV93). Putative mitochondrial ATPase.
This gene encodes a mitochondrial integral membrane protein that plays a role in mitochondrial protein homeostasis. The protein contains a P-loop motif and a five-domain structure that is conserved in fly, yeast, and bacteria. It functions to mediate the degradation of nuclear-encoded complex IV subunits. Two conserved estrogen receptor binding sites are located within 2.5 kb of this gene. Polymorphisms in this gene have been associated with bipolar disorder. Alternative splicing results in multiple transcript variants.
Source: NCBI Gene 246269 — RefSeq curated summary.
At a glance
- GWAS associations: 9
- Clinical variants (ClinVar): 101 total — 11 pathogenic
- Phenotypes (HPO): 1
- MANE Select transcript:
NM_145315
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:16411 |
| Approved symbol | AFG1L |
| Name | AFG1 like ATPase |
| Location | 6q21 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | AFG1 |
| Ensembl gene | ENSG00000135537 |
| Ensembl biotype | protein_coding |
| OMIM | 617469 |
| Entrez | 246269 |
Gene structure
Transcript identifiers
Ensembl transcripts: 15 — 11 protein_coding, 2 protein_coding_CDS_not_defined, 1 nonsense_mediated_decay, 1 retained_intron
ENST00000368977, ENST00000421954, ENST00000430458, ENST00000431865, ENST00000437715, ENST00000481842, ENST00000486863, ENST00000908136, ENST00000908137, ENST00000908138, ENST00000908139, ENST00000908140, ENST00000908141, ENST00000908142, ENST00000955934
RefSeq mRNA: 2 — MANE Select: NM_145315
NM_001323005, NM_145315
CCDS: CCDS5067
Canonical transcript exons
ENST00000368977 — 13 exons
| Exon | Start | End |
|---|---|---|
| ENSE00000919019 | 108346988 | 108347039 |
| ENSE00000919020 | 108355654 | 108355755 |
| ENSE00001448510 | 108295054 | 108295218 |
| ENSE00001899405 | 108522297 | 108526001 |
| ENSE00002167115 | 108366233 | 108366332 |
| ENSE00002179833 | 108401996 | 108402054 |
| ENSE00002201431 | 108356690 | 108356820 |
| ENSE00003495504 | 108447214 | 108447296 |
| ENSE00003496351 | 108519697 | 108519810 |
| ENSE00003533096 | 108510212 | 108510352 |
| ENSE00003538869 | 108477192 | 108477292 |
| ENSE00003546718 | 108476865 | 108476935 |
| ENSE00003699226 | 108323825 | 108324048 |
Expression profiles
Bgee: expression breadth ubiquitous, 164 present calls, max score 87.57.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 6.5128 / max 65.7214, expressed in 1747 samples.
FANTOM5 promoters (4 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 69185 | 3.8950 | 1580 |
| 69184 | 1.3243 | 780 |
| 69183 | 1.2882 | 726 |
| 69187 | 0.0052 | 3 |
Top tissues by expression
243 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| left testis | UBERON:0004533 | 87.57 | gold quality |
| right testis | UBERON:0004534 | 87.29 | gold quality |
| male germ line stem cell (sensu Vertebrata) in testis | CL:0000089 ∩ UBERON:0000473 | 84.68 | gold quality |
| testis | UBERON:0000473 | 83.89 | gold quality |
| primordial germ cell in gonad | CL:0000670 ∩ UBERON:0000991 | 79.61 | gold quality |
| adrenal tissue | UBERON:0018303 | 79.21 | gold quality |
| ventricular zone | UBERON:0003053 | 76.71 | gold quality |
| muscle of leg | UBERON:0001383 | 76.64 | gold quality |
| hindlimb stylopod muscle | UBERON:0004252 | 76.51 | gold quality |
| gastrocnemius | UBERON:0001388 | 76.50 | gold quality |
| calcaneal tendon | UBERON:0003701 | 75.40 | gold quality |
| islet of Langerhans | UBERON:0000006 | 75.24 | gold quality |
| right adrenal gland cortex | UBERON:0035827 | 74.31 | gold quality |
| cortical plate | UBERON:0005343 | 74.19 | gold quality |
| right adrenal gland | UBERON:0001233 | 74.10 | gold quality |
| apex of heart | UBERON:0002098 | 74.09 | gold quality |
| ganglionic eminence | UBERON:0004023 | 73.87 | gold quality |
| colonic epithelium | UBERON:0000397 | 73.72 | gold quality |
| heart left ventricle | UBERON:0002084 | 73.53 | gold quality |
| right atrium auricular region | UBERON:0006631 | 72.96 | gold quality |
| rectum | UBERON:0001052 | 72.95 | gold quality |
| left adrenal gland | UBERON:0001234 | 72.77 | gold quality |
| stromal cell of endometrium | CL:0002255 | 72.60 | gold quality |
| cardiac ventricle | UBERON:0002082 | 72.41 | gold quality |
| cardiac atrium | UBERON:0002081 | 72.14 | gold quality |
| monocyte | CL:0000576 | 71.65 | gold quality |
| prefrontal cortex | UBERON:0000451 | 71.59 | gold quality |
| adrenal gland | UBERON:0002369 | 71.59 | gold quality |
| leukocyte | CL:0000738 | 71.51 | gold quality |
| left adrenal gland cortex | UBERON:0035825 | 71.45 | gold quality |
Single-cell (SCXA)
Detected in 1 experiment(s), a significant marker in 0.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-ANND-3 | no | 5.20 |
Regulation
Is transcription factor: no
miRNA regulators (miRDB)
139 targeting AFG1L, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):
| miRNA | Max score | Avg score | miRNA target_count |
|---|---|---|---|
| HSA-MIR-3163 | 100.00 | 77.23 | 8605 |
| HSA-MIR-4795-3P | 100.00 | 74.62 | 4024 |
| HSA-MIR-126-5P | 100.00 | 72.71 | 3180 |
| HSA-MIR-340-5P | 100.00 | 72.50 | 4437 |
| HSA-MIR-4682 | 100.00 | 68.89 | 1258 |
| HSA-MIR-5692A | 100.00 | 74.40 | 6850 |
| HSA-MIR-188-3P | 100.00 | 68.76 | 1240 |
| HSA-MIR-3662 | 99.99 | 73.82 | 5684 |
| HSA-MIR-186-5P | 99.99 | 70.83 | 3707 |
| HSA-MIR-513B-5P | 99.99 | 69.96 | 2150 |
| HSA-MIR-4282 | 99.99 | 75.36 | 6408 |
| HSA-MIR-4531 | 99.99 | 69.70 | 3181 |
| HSA-MIR-4775 | 99.98 | 75.00 | 6394 |
| HSA-MIR-4482-3P | 99.98 | 72.50 | 3147 |
| HSA-MIR-3617-3P | 99.98 | 67.86 | 918 |
| HSA-MIR-548N | 99.98 | 71.94 | 4170 |
| HSA-MIR-507 | 99.97 | 70.11 | 1915 |
| HSA-MIR-7152-3P | 99.97 | 67.47 | 849 |
| HSA-MIR-590-3P | 99.96 | 74.34 | 6478 |
| HSA-MIR-557 | 99.96 | 70.01 | 1640 |
| HSA-MIR-545-3P | 99.95 | 70.74 | 2783 |
| HSA-MIR-6835-3P | 99.93 | 70.49 | 2904 |
| HSA-MIR-1-3P | 99.93 | 72.35 | 1914 |
| HSA-MIR-335-3P | 99.93 | 73.36 | 4958 |
| HSA-MIR-4760-3P | 99.93 | 70.50 | 2385 |
| HSA-MIR-106A-5P | 99.90 | 73.94 | 2683 |
| HSA-MIR-8087 | 99.90 | 69.55 | 1351 |
| HSA-MIR-95-5P | 99.89 | 72.17 | 3973 |
| HSA-MIR-17-5P | 99.89 | 73.83 | 2665 |
| HSA-MIR-106B-5P | 99.88 | 74.72 | 2795 |
Literature-anchored findings (GeneRIF, showing 3)
- association between bipolar disorder and two SNPs in the gene LACE1 (PMID:20872768)
- This study establishes LACE1 as a novel factor with a crucial role in mitochondrial protein homeostasis. (PMID:26759378)
- Increased expression of LACE1 partitions p53 to mitochondria, causes reduction in nuclear p53 content and induces apoptosis. Thus, LACE1 mediates mitochondrial translocation of p53 and its transcription-independent apoptosis. (PMID:27323408)
Cross-species orthologs
5 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | afg1la | ENSDARG00000011466 |
| mus_musculus | Afg1l | ENSMUSG00000038302 |
| rattus_norvegicus | AABR07045431.1 | ENSRNOG00000043033 |
| drosophila_melanogaster | CG8520 | FBGN0033734 |
| caenorhabditis_elegans | C30F12.2 | WBGENE00016261 |
Protein
Protein identifiers
AFG1-like ATPase — Q8WV93 (reviewed: Q8WV93)
Alternative names: Lactation elevated protein 1, Protein AFG1 homolog
All UniProt accessions (4): Q8WV93, A6ZJA2, H0Y5F4, H7C448
UniProt curated annotations — full annotation on UniProt →
Function. Putative mitochondrial ATPase. Plays a role in mitochondrial morphology and mitochondrial protein metabolism. Promotes degradation of excess nuclear-encoded complex IV subunits (COX4I1, COX5A and COX6A1) and normal activity of complexes III and IV of the respiratory chain. Mediates mitochondrial translocation of TP53 and its transcription-independent apoptosis in response to genotoxic stress.
Subunit / interactions. Found in several complexes of 140-500 kDa. Interacts with YME1L1. Interacts with COX4I1. Interacts with COX5A. Interacts with TP53; mediates mitochondrial translocation of TP53 in response to genotoxic stress such as mitomycin C treatment.
Subcellular location. Mitochondrion membrane.
Similarity. Belongs to the AFG1 ATPase family.
RefSeq proteins (2): NP_001309934, NP_660358* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR005654 | ATPase_AFG1-like | Family |
| IPR027417 | P-loop_NTPase | Homologous_superfamily |
Pfam: PF03969
UniProt features (6 total): mutagenesis site 3, binding site 2, chain 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q8WV93-F1 | 78.92 | 0.50 |
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Ligand- & substrate-binding residues (2): 136–143; 209–214
Mutagenesis-validated functional residues (3):
| Position | Phenotype |
|---|---|
| 142 | does not affect mitochondrial targeting. increased amount of unprocessed protein form. fails to rescue the increased acc |
| 143 | reduces mitochondrial targeting. increased amount of unprocessed protein form. reduces mitochondrial targeting; when ass |
| 214 | does not affect subcellular location. fails to rescue the increased accumulation of complex iv subunits in afg1l-deficie |
Function
Pathways and Gene Ontology
Reactome pathways
0 pathways
MSigDB gene sets: 121 (showing top):
TGCACTT_MIR519C_MIR519B_MIR519A, GOBP_MACROMOLECULE_CATABOLIC_PROCESS, GOCC_MITOCHONDRIAL_ENVELOPE, GOBP_PROTEIN_CATABOLIC_PROCESS, KONDO_PROSTATE_CANCER_HCP_WITH_H3K27ME3, GOBP_PROTEOLYSIS, GOMF_HYDROLASE_ACTIVITY_ACTING_ON_ACID_ANHYDRIDES, GCACTTT_MIR175P_MIR20A_MIR106A_MIR106B_MIR20B_MIR519D, GOMF_ATP_HYDROLYSIS_ACTIVITY, GOMF_ADENYL_NUCLEOTIDE_BINDING, GOCC_ORGANELLE_ENVELOPE, WANG_RESPONSE_TO_GSK3_INHIBITOR_SB216763_UP, GOBP_PROTEIN_QUALITY_CONTROL_FOR_MISFOLDED_OR_INCOMPLETELY_SYNTHESIZED_PROTEINS, GOBP_MITOCHONDRIAL_PROTEIN_CATABOLIC_PROCESS, BARX1_TARGET_GENES
GO Biological Process (3): mitochondrion organization (GO:0007005), mitochondrial protein catabolic process (GO:0035694), mitochondrial protein quality control (GO:0141164)
GO Molecular Function (5): ATP binding (GO:0005524), ATP hydrolysis activity (GO:0016887), nucleotide binding (GO:0000166), protein binding (GO:0005515), hydrolase activity (GO:0016787)
GO Cellular Component (4): cytoplasm (GO:0005737), mitochondrion (GO:0005739), mitochondrial membrane (GO:0031966), membrane (GO:0016020)
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| mitochondrion | 2 |
| cellular anatomical structure | 2 |
| organelle organization | 1 |
| mitochondrion organization | 1 |
| protein catabolic process | 1 |
| protein quality control for misfolded or incompletely synthesized proteins | 1 |
| adenyl ribonucleotide binding | 1 |
| purine ribonucleoside triphosphate binding | 1 |
| ribonucleoside triphosphate phosphatase activity | 1 |
| ATP-dependent activity | 1 |
| nucleoside phosphate binding | 1 |
| heterocyclic compound binding | 1 |
| binding | 1 |
| catalytic activity | 1 |
| intracellular anatomical structure | 1 |
| cytoplasm | 1 |
| intracellular membrane-bounded organelle | 1 |
| mitochondrial envelope | 1 |
| organelle membrane | 1 |
Protein interactions and networks
STRING
480 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| AFG1L | AFG2A | Q8NB90 | 984 |
| AFG1L | YME1L1 | Q96TA2 | 536 |
| AFG1L | PACRGL | Q8N7B6 | 434 |
| AFG1L | KCNQ2 | O43526 | 431 |
| AFG1L | PLAAT5 | Q96KN8 | 420 |
| AFG1L | ZNF280D | Q6N043 | 416 |
| AFG1L | ALB | P02768 | 397 |
| AFG1L | DTNBP1 | Q96EV8 | 378 |
| AFG1L | BCAS3 | Q9H6U6 | 377 |
| AFG1L | CYP2A13 | Q16696 | 370 |
| AFG1L | VCP | P55072 | 367 |
| AFG1L | CLPB | Q9H078 | 365 |
| AFG1L | ALDH18A1 | P54886 | 353 |
| AFG1L | SDHC | Q99643 | 351 |
| AFG1L | TEFM | Q96QE5 | 350 |
IntAct
12 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| BANP | AFG1L | psi-mi:“MI:0915”(physical association) | 0.560 |
| AFG1L | BANP | psi-mi:“MI:0915”(physical association) | 0.560 |
| AFG1L | CIDEB | psi-mi:“MI:0915”(physical association) | 0.560 |
| AFG1L | SLC25A6 | psi-mi:“MI:0914”(association) | 0.350 |
| AFG1L | C1QBP | psi-mi:“MI:0914”(association) | 0.350 |
| AFG1L | ALDH1L1 | psi-mi:“MI:0914”(association) | 0.350 |
| AFG1L | CIDEB | psi-mi:“MI:0915”(physical association) | 0.000 |
| AFG1L | gcvP | psi-mi:“MI:0915”(physical association) | 0.000 |
BioGRID (15): LACE1 (Two-hybrid), LACE1 (Affinity Capture-MS), XPNPEP3 (Affinity Capture-MS), ECH1 (Affinity Capture-MS), CHCHD2 (Affinity Capture-MS), PMPCB (Affinity Capture-MS), C1QBP (Affinity Capture-MS), DDAH1 (Affinity Capture-MS), CIDEB (Two-hybrid), LACE1 (Affinity Capture-RNA), LACE1 (Proximity Label-MS), LACE1 (Co-fractionation), WDR13 (Co-fractionation), LACE1 (Affinity Capture-MS), LACE1 (Affinity Capture-RNA)
ESM2 similar proteins: A0A0B7P9G0, A0A0R4IMY7, A0JPA0, D3ZAA9, O35454, P0C1Q3, P0C588, P16067, P20594, P32232, P33402, P35525, P46197, P47823, P51432, P51788, Q01970, Q13144, Q14168, Q1LWG4, Q32PX9, Q3TWN3, Q3USB7, Q3V384, Q4U2V3, Q502J0, Q5EBA1, Q5U2P1, Q62688, Q66K14, Q69ZF7, Q6P4Q7, Q7L5N7, Q80YD1, Q8BYI6, Q8CIR4, Q8IYB8, Q8K394, Q8WV93, Q91WT9
Diamond homologs: O42895, P32317, P46441, P64612, P64613, Q32PX9, Q3V384, Q5TYS0, Q8WV93
SIGNOR signaling
0 interactions.
Disease & clinical
Clinical variants and AI predictions
ClinVar
101 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 11 |
| Likely pathogenic | 0 |
| Uncertain significance | 77 |
| Likely benign | 1 |
| Benign | 0 |
Top pathogenic / likely-pathogenic (11)
| Variant ID | HGVS | Classification |
|---|---|---|
| 145430 | GRCh38/hg38 6q16.3-21(chr6:102356502-111049879)x1 | Pathogenic |
| 148944 | GRCh38/hg38 6q21-22.1(chr6:107370141-115827482)x1 | Pathogenic |
| 150641 | GRCh38/hg38 6q16.1-22.31(chr6:96609994-122161548)x1 | Pathogenic |
| 1527263 | GRCh37/hg19 6q14.3-22.31(chr6:85988428-120548687) | Pathogenic |
| 1527266 | GRCh37/hg19 6q15-22.2(chr6:92054891-118329651) | Pathogenic |
| 152877 | GRCh38/hg38 6q21(chr6:107445281-110547907)x1 | Pathogenic |
| 2685211 | GRCh37/hg19 6q15-21(chr6:92468126-109410569)x1 | Pathogenic |
| 442063 | GRCh37/hg19 6q16.1-21(chr6:97384446-110247755)x1 | Pathogenic |
| 443296 | GRCh37/hg19 6q16.1-21(chr6:94202605-109878834)x1 | Pathogenic |
| 563204 | GRCh37/hg19 6q16.1-22.1(chr6:95549951-116684929)x1 | Pathogenic |
| 974790 | GRCh37/hg19 6q16.3-22.1(chr6:101296547-117004249)x3 | Pathogenic |
SpliceAI
2990 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 6:108323822:T:G | acceptor_gain | 1.0000 |
| 6:108323823:A:AG | acceptor_gain | 1.0000 |
| 6:108323823:A:T | acceptor_loss | 1.0000 |
| 6:108323824:G:GA | acceptor_gain | 1.0000 |
| 6:108323824:GC:G | acceptor_gain | 1.0000 |
| 6:108323824:GCC:G | acceptor_gain | 1.0000 |
| 6:108323824:GCCT:G | acceptor_gain | 1.0000 |
| 6:108323824:GCCTA:G | acceptor_gain | 1.0000 |
| 6:108324045:AAAG:A | donor_loss | 1.0000 |
| 6:108324047:AGG:A | donor_loss | 1.0000 |
| 6:108324048:GGTGA:G | donor_loss | 1.0000 |
| 6:108324049:G:A | donor_loss | 1.0000 |
| 6:108355652:A:G | acceptor_gain | 1.0000 |
| 6:108355756:G:GG | donor_gain | 1.0000 |
| 6:108356673:A:AG | acceptor_gain | 1.0000 |
| 6:108356674:A:G | acceptor_gain | 1.0000 |
| 6:108356679:A:AG | acceptor_gain | 1.0000 |
| 6:108356679:AT:A | acceptor_gain | 1.0000 |
| 6:108356680:T:G | acceptor_gain | 1.0000 |
| 6:108356680:T:TA | acceptor_gain | 1.0000 |
| 6:108356683:A:AG | acceptor_gain | 1.0000 |
| 6:108356684:T:G | acceptor_gain | 1.0000 |
| 6:108356687:AAG:A | acceptor_gain | 1.0000 |
| 6:108356688:A:AG | acceptor_gain | 1.0000 |
| 6:108356689:G:GG | acceptor_gain | 1.0000 |
| 6:108356689:GGA:G | acceptor_gain | 1.0000 |
| 6:108356819:AGG:A | donor_loss | 1.0000 |
| 6:108356820:GG:G | donor_loss | 1.0000 |
| 6:108356822:T:G | donor_loss | 1.0000 |
| 6:108366330:AAGGT:A | donor_loss | 1.0000 |
AlphaMissense
3168 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 6:108366314:T:C | S244P | 1.000 |
| 6:108366315:C:A | S244Y | 1.000 |
| 6:108366315:C:T | S244F | 1.000 |
| 6:108366319:C:A | N245K | 1.000 |
| 6:108366319:C:G | N245K | 1.000 |
| 6:108347031:G:A | G136E | 0.999 |
| 6:108347031:G:T | G136V | 0.999 |
| 6:108347039:G:C | G139R | 0.999 |
| 6:108355654:G:A | G139D | 0.999 |
| 6:108355660:G:A | G141E | 0.999 |
| 6:108355660:G:T | G141V | 0.999 |
| 6:108355662:A:C | K142Q | 0.999 |
| 6:108355663:A:T | K142I | 0.999 |
| 6:108355664:A:C | K142N | 0.999 |
| 6:108355664:A:T | K142N | 0.999 |
| 6:108355666:C:T | T143I | 0.999 |
| 6:108355725:T:C | F163L | 0.999 |
| 6:108355727:T:A | F163L | 0.999 |
| 6:108355727:T:G | F163L | 0.999 |
| 6:108355734:T:C | F166L | 0.999 |
| 6:108355735:T:C | F166S | 0.999 |
| 6:108355736:C:A | F166L | 0.999 |
| 6:108355736:C:G | F166L | 0.999 |
| 6:108356771:C:A | A200D | 0.999 |
| 6:108356810:A:C | D213A | 0.999 |
| 6:108356810:A:G | D213G | 0.999 |
| 6:108356810:A:T | D213V | 0.999 |
| 6:108356812:G:A | E214K | 0.999 |
| 6:108356813:A:C | E214A | 0.999 |
| 6:108356813:A:G | E214G | 0.999 |
dbSNP variants (sampled 300 via entrez): RS1000002384 (6:108405913 T>A), RS1000010548 (6:108442286 G>C), RS1000013425 (6:108347233 C>G), RS1000015980 (6:108397739 C>T), RS1000025317 (6:108300056 CAA>C), RS1000028183 (6:108339943 A>G), RS1000034336 (6:108357207 T>C), RS1000043671 (6:108310415 T>C,G), RS1000067180 (6:108492838 A>G), RS1000101652 (6:108461976 T>C), RS1000124012 (6:108443840 A>C), RS1000127498 (6:108343165 A>G), RS1000132823 (6:108449003 G>C), RS1000144268 (6:108378727 A>T), RS1000151846 (6:108439825 C>T)
Disease associations
OMIM: gene MIM:617469 | disease phenotypes:
GenCC curated gene-disease
Mondo (3): Charcot-Marie-Tooth disease type 4 (MONDO:0018995), intellectual disability (MONDO:0001071), microcephaly (MONDO:0001149)
Orphanet (2): Charcot-Marie-Tooth disease type 4 (Orphanet:64749), NON RARE IN EUROPE: Unexplained intellectual disability (Orphanet:319658)
HPO phenotypes
1 total (1 of 1 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000252 | Microcephaly |
GWAS associations
9 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST001762_554 | Obesity-related traits | 6.000000e-06 |
| GCST001942_10 | Prostate cancer | 8.000000e-09 |
| GCST004364_1 | Intelligence | 2.000000e-12 |
| GCST004364_19 | Intelligence | 1.000000e-13 |
| GCST005316_40 | Intelligence (MTAG) | 2.000000e-08 |
| GCST005316_44 | Intelligence (MTAG) | 2.000000e-10 |
| GCST006269_676 | General cognitive ability | 6.000000e-10 |
| GCST006269_902 | General cognitive ability | 1.000000e-08 |
| GCST012285_4 | Hepatitis B | 2.000000e-06 |
EFO canonical traits (1, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0004337 | intelligence |
MeSH disease descriptors (2)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D008607 | Intellectual Disability | C10.597.606.360; C23.888.592.604.646; F01.700.687; F03.625.539 |
| D008831 | Microcephaly | C05.660.207.620; C10.500.507.400.500; C16.131.621.207.620; C16.131.666.507.400.500 |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
21 total (human), top 21 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Benzo(a)pyrene | affects methylation, decreases expression | 3 |
| Aflatoxin B1 | decreases expression, increases methylation | 2 |
| methyleugenol | decreases expression | 1 |
| triphenyl phosphate | affects expression | 1 |
| bisphenol A | decreases methylation | 1 |
| testosterone undecanoate | affects cotreatment, increases expression | 1 |
| arsenite | affects binding, increases reaction | 1 |
| potassium chromate(VI) | affects cotreatment, decreases expression | 1 |
| butylbenzyl phthalate | increases expression | 1 |
| epigallocatechin gallate | affects cotreatment, decreases expression | 1 |
| perfluorooctane sulfonic acid | increases expression | 1 |
| abrine | increases expression | 1 |
| (+)-JQ1 compound | decreases expression | 1 |
| Sunitinib | decreases expression | 1 |
| Fulvestrant | increases methylation | 1 |
| Urethane | decreases expression | 1 |
| Levonorgestrel | affects cotreatment, increases expression | 1 |
| Sodium Selenite | increases expression | 1 |
| Okadaic Acid | decreases expression | 1 |
| Copper Sulfate | decreases expression | 1 |
| Acrylamide | increases expression | 1 |
Clinical trials (associated diseases)
211 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT05657860 | PHASE4 | COMPLETED | Guanfacine Extended Release for the Reduction of Aggression and Self-injurious Behavior Associated With Prader-Willi Syndrome |
| NCT05744479 | PHASE4 | RECRUITING | Metformin for Antipsychotic-induced Weight Gain in Adults With Intellectual Disability |
| NCT06107829 | PHASE4 | WITHDRAWN | Valbenazine Treatment of Tardive Dyskinesia in Adults With Intellectual/Developmental Disabilities |
| NCT06997198 | PHASE4 | NOT_YET_RECRUITING | Deutetrabenazine Treatment for Tardive Dyskinesia in Intellectual/Developmental Disabilities |
| NCT02270736 | PHASE3 | COMPLETED | Clinical Study to Investigate the Efficacy and Safety of NT 201 Compared to Placebo in the Treatment of Chronic Troublesome Drooling Associated With Neurological Disorders and/or Intellectual Disability |
| NCT02304302 | PHASE2 | COMPLETED | Down Syndrome Memantine Follow-up Study |
| NCT03862950 | PHASE2 | COMPLETED | A Trial of Metformin in Individuals With Fragile X Syndrome (Met) |
| NCT04529226 | PHASE2 | UNKNOWN | Study to Compare Clozapine vs Treatment as Usual in People With Intellectual Disability & Treatment-resistant Psychosis |
| NCT04821856 | PHASE2 | COMPLETED | Evaluation of the Effectiveness of Cannabidiol in Treating Severe Behavioural Problems in Children and Adolescents With Intellectual Disability |
| NCT05273320 | PHASE1 | COMPLETED | Clinical Trial of Nabilone for Aggression in Adults With Intellectual and Developmental Disabilities |
| NCT05301361 | PHASE1 | ENROLLING_BY_INVITATION | Sensitivity of the NIH Toolbox to Stimulant Treatment in Intellectual Disabilities |
| NCT06016764 | PHASE1 | COMPLETED | Use of MRI and cTBS for Catatonia in Autism |
| NCT06586827 | PHASE1 | COMPLETED | Impact of Competency-Based Training and Technical Assistance Employment Outcomes of Individuals With ID/DD |
| NCT07531940 | PHASE1 | NOT_YET_RECRUITING | Escalating Doses of Memantine in Down Syndrome (MEDS-123) |
| NCT03479476 | PHASE2/PHASE3 | COMPLETED | A Trial of Metformin in Individuals With Fragile X Syndrome |
| NCT02616796 | PHASE1/PHASE2 | COMPLETED | Effects of Social Gaze Training on Brain and Behavior in Fragile X Syndrome |
| NCT06860672 | EARLY_PHASE1 | RECRUITING | Clinical Trial of the Dual Vector Base Editor for the Treatment of the CHD3-R1025W Mutation |
| NCT00597948 | Not specified | COMPLETED | Healthy Lifestyles for People With Intellectual Disabilities |
| NCT01087320 | Not specified | RECRUITING | Genome Medical Sequencing for Gene Discovery |
| NCT01652963 | Not specified | UNKNOWN | Picture-based Computerised Assessment and Training of Cognitive Behaviour Therapy Skills |
| NCT01695395 | Not specified | COMPLETED | Mental Health Care Provision for Adults With Intellectual Disability and a Mental Disorder |
| NCT01867554 | Not specified | COMPLETED | Research and Characterization of New Genes Involved in Intellectual Disability |
| NCT01915381 | Not specified | COMPLETED | Improving Adherence Healthy Lifestyle With a Smartphone Application Based on Adults With Intellectual Disabilities |
| NCT01988623 | Not specified | COMPLETED | Pivotal Response Treatment for Individuals With Intellectual Disabilities |
| NCT02099773 | Not specified | COMPLETED | Support Staff-client Interactions With Augmentative and Alternative Communication |
| NCT02136849 | Not specified | COMPLETED | Inter-regional Project of the Great Western Exploration Approach for Exome Molecular Causes Severe Intellectual Disability Isolated or Syndromic |
| NCT02225041 | Not specified | COMPLETED | Sedation Strategy and Cognitive Outcome After Critical Illness in Early Childhood |
| NCT02414438 | Not specified | COMPLETED | Establishing the Clinical Utility of First StepDx PLUS and NextStepDx PLUS Study |
| NCT02451761 | Not specified | COMPLETED | Apparently Balanced Chromosomal Translocation/ Next-generation Sequencing/ Intellectual Disability |
| NCT02461420 | Not specified | ACTIVE_NOT_RECRUITING | Mapping the Genotype, Phenotype, and Natural History of Phelan-McDermid Syndrome |
| NCT02461459 | Not specified | ACTIVE_NOT_RECRUITING | Autism Spectrum Disorder (ASD) and Intellectual Disability (ID) Determinants in Tuberous Sclerosis Complex (TSC) |
| NCT02486081 | Not specified | COMPLETED | Development and Application-Smart Football for Movement Evaluation and Training in the Special Education Population |
| NCT02504502 | Not specified | COMPLETED | Enhancing Genomic Laboratory Reports to Enhance Communication and Empower Patients |
| NCT02513277 | Not specified | COMPLETED | Diabetes Screening & Prevention for People With Learning (Intellectual) Disabilities:STOP Diabetes Study |
| NCT02561754 | Not specified | COMPLETED | Weight Management for Adolescents With IDD |
| NCT02591446 | Not specified | COMPLETED | Transcranial Magnetic Stimulation Studies in Autism Spectrum Disorders |
| NCT02714868 | Not specified | COMPLETED | Evaluation of Project TEAM (Teens Making Environmental and Activity Modifications) |
| NCT02721394 | Not specified | UNKNOWN | FCT With Young Children With ID in the UK: A Feasibility Project V.1 |
| NCT02746614 | Not specified | COMPLETED | Psychomotor Therapy Effects in Adaptive Behavior and Motor Proficiency in Intellectual Disability |
| NCT02836405 | Not specified | COMPLETED | TMS for the Investigation of Brain Plasticity in Autism Spectrum Disorders |
Related Atlas pages
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): Charcot-Marie-Tooth disease type 4, hepatitis B virus infection